Solysis

An animal behavior and Calcium imaging analysis pipeline. It's still in the early development stage so goodluck XD.

Download

In a blank folder:

git clone https://github.com/Solhvemjsun/Solysis

Launching

Using Nix package manager or NixOS (recommended)

In the folder

nix develop

You will enter the nix environment containing all the required package, and Jupyterlab will automatically launched in your browser.

Using Conda

Import the conda environment (environment.yml) in your Conda shell (you only need to do this once).

conda env create -f -n Solysis.yaml

Enter the environment:

conda activate Solysis

Launching the jupyter-lab:

jupyter-lab

Using Anaconda client

Import the environment, activate it, then launch the jupyter-lab in the homepage.

Function

Reconstruct animal's 3D trajectory: Please check the interactive demo.